all Publications

Liu, Z., Lee, D.S., Liang, Y., Zheng, Y., Dixon, J.R. Foxp3 orchestrates reorganization of chromatin architecture to establish regulatory T cell identity. (2023) Nature Communications. 14(1):6943. DOI: 10.1038/s41467-023-42647-y

Chen, D., Varanasi, S.K., Hara, T., Traina, K., Sun, M., McDonald, B., Farsakoglu, Y., Clanton, J., Xu, S., Garcia-Rivera, L., Mann, T.H., Du, V., Chung, H.K., Xu, Z., Tripple, V., Casillas, E., Ma, S., O’Connor, C., Yang, Q., Zheng, Y., Hunter, T., Lemke, G., Kaech, S.M. CTLA-4 blockade induces CD4 T cell IFNγ-driven microglial phagocytosis and anti-tumor function in glioblastoma. (2023) Immunity. DOI: 10.1016/j.immuni.2023.07.015

Liu, Z., Lee, D.S., Liang, Y., Zheng, Y., Dixon, J.R. Foxp3 Orchestrates Reorganization of Chromatin Architecture to Establish Regulatory T Cell Identity. (2023) bioRxiv. DOI: 10.1101/2023.02.22.529589

Ma, S., Yang, Q., Chen, N., Zheng, A., Abbasi, N., Wang, G., Patel, P.R., Cho, B.S., Yee, B.A., Zhang, L., Chu, H., Evans, S.M., Yeo, G.W., Zheng, Y., Huang, W.J.M. RNA binding protein DDX5 restricts RORγt T suppressor function to promote intestine inflammation. (2023) Science Advances. 9(5):eadd6165. DOI: 10.1126/sciadv.add6165

Fu, T., Li, Y., Oh, T.G., Cayabyab, F., He, N., Tang, Q., Coulter, S., Truitt, M., Medina, P., He, M., Yu, R.T., Atkins, A., Zheng, Y., Liddle, C., Downes, M., Evans, R.M. FXR mediates ILC-intrinsic responses to intestinal inflammation. (2022) Proceedings of the National Academy of Sciences of the United States of America. 119(51):e2213041119. DOI: 10.1073/pnas.2213041119

Liu, Z., Hu, X., Liang, Y., Yu, J., Li, H., Shokhirev, M.N., Zheng, Y. Glucocorticoid signaling and regulatory T cells cooperate to maintain the hair-follicle stem-cell niche. (2022) Nature Immunology. DOI: 10.1038/s41590-022-01244-9

Choi, J., Oh, T.G., Jung, H., Park, K.Y., Shin, H., Jo, T., Kang, D.S., Chanda, D., Hong, S., Kim, J., Hwang, H., Ji, M., Jung, M., Takashihoji., Matsushima, A., Kim, P., Mun, J.Y., Paik, M.J., Cho, S.J., Lee, I.K., Whitcomb, D.C., Greer, P., Blobner, B., Goodarzi, M.O., Pandol, S.J., Rotter, J.I., Fan, W., Bapat, S.P., Zheng, Y., Liddle, C., Yu, R.T., Atkins, A.R., Downes, M., Yoshihara, E., Evans, R.M., Suh, J.M., . Estrogen-Related Receptor γ maintains pancreatic acinar cell function and identity by regulating cellular metabolism. (2022) Gastroenterology. DOI: 10.1053/j.gastro.2022.04.013

Bapat, S.P., Whitty, C., Mowery, C.T., Liang, Y., Yoo, A., Jiang, Z., Peters, M.C., Zhang, L.J., Vogel, I., Zhou, C., Nguyen, V.Q., Li, Z., Chang, C., Zhu, W.S., Hastie, A.T., He, H., Ren, X., Qiu, W., Gayer, S.G., Liu, C., Choi, E.J., Fassett, M., Cohen, J.N., Sturgill, J.L., Crotty Alexander, L.E., Suh, J.M., Liddle, C., Atkins, A.R., Yu, R.T., Downes, M., Liu, S., Nikolajczyk, B.S., Lee, I.K., Guttman-Yassky, E., Ansel, K.M., Woodruff, P.G., Fahy, J.V., Sheppard, D., Gallo, R.L., Ye, C.J., Evans, R.M., Zheng, Y., Marson, A. Obesity alters pathology and treatment response in inflammatory disease. (2022) Nature. 604(7905):337-342. DOI: 10.1038/s41586-022-04536-0

Qiu, Z., Zhao, L., Shen, J.Z., Liang, Z., Wu, Q., Yang, K., Min, L., Gimple, R.C., Yang, Q., Bhargava, S., Jin, C., Kim, C., Hinz, D., Dixit, D., Bernatchez, J.A., Prager, B.C., Zhang, G., Dong, Z., Lv, D., Wang, X., Kim, L.J.Y., Zhu, Z., Jones, K.A., Zheng, Y., Wang, X., Siqueira-Neto, J.L., Chavez, L., Fu, X.D., Spruck, C., Rich, J.N. Transcription Elongation Machinery Is a Druggable Dependency and Potentiates Immunotherapy in Glioblastoma Stem Cells. (2021) Cancer Discovery. DOI: 10.1158/2159-8290.CD-20-1848

Arnett, A., Moo, K.G., Flynn, K.J., Sundberg, T.B., Johannessen, L., Shamji, A.F., Gray, N.S., Decker, T., Zheng, Y., Gersuk, V.H., Rahman, Z.S., Levy, D.E., Marié, I.J., Linsley, P.S., Xavier, R.J., Khor, B. The CDK8 inhibitor DCA promotes a tolerogenic chemical immunophenotype in CD4 T cells via a novel CDK8-GATA3-FOXP3 pathway. (2021) Molecular and Cellular Biology.:MCB0008521 DOI: 10.1128/MCB.00085-21

Loo, C.S., Gatchalian, J., Liang, Y., Leblanc, M., Xie, M., Ho, J., Venkatraghavan, B., Hargreaves, D.C., Zheng, Y. A Genome-wide CRISPR Screen Reveals a Role for the Non-Canonical Nucleosome-Remodeling BAF Complex in Foxp3 Expression and Regulatory T Cell Function. (2020) Immunity. DOI: 10.1016/j.immuni.2020.06.011

Hang, S., Paik, D., Yao, L., Kim, E., Jamma, T., Lu, J., Ha, S., Nelson, B.N., Kelly, S.P., Wu, L., Zheng, Y., Longman, R.S., Rastinejad, F., Devlin, A.S., Krout, M.R., Fischbach, M.A., Littman, D.R., Huh, J.R. Bile acid metabolites control T17 and T cell differentiation. (2019) Nature. DOI: 10.1038/s41586-019-1785-z

Bapat, S.P., Liang, Y., Zheng, Y. Characterization of Immune Cells from Adipose Tissue. (2019) Current Protocols in Immunology. 126(1):e86. DOI: 10.1002/cpim.86

Chang, C., Loo, C.S., Zhao, X., Solt, L.A., Liang, Y., Bapat, S.P., Cho, H., Kamenecka, T.M., Leblanc, M., Atkins, A.R., Yu, R.T., Downes, M., Burris, T.P., Evans, R.M., Zheng, Y. The nuclear receptor REV-ERBα modulates Th17 cell-mediated autoimmune disease. (2019) Proceedings of the National Academy of Sciences of the United States of America. 116(37):18528-18536. DOI: 10.1073/pnas.1907563116

Owen, D.L., Mahmud, S.A., Sjaastad, L.E., Williams, J.B., Spanier, J.A., Simeonov, D.R., Ruscher, R., Huang, W., Proekt, I., Miller, C.N., Hekim, C., Jeschke, J.C., Aggarwal, P., Broeckel, U., LaRue, R.S., Henzler, C.M., Alegre, M.L., Anderson, M.S., August, A., Marson, A., Zheng, Y., Williams, C.B., Farrar, M.A. Thymic regulatory T cells arise via two distinct developmental programs. (2019) Nature Immunology. DOI: 10.1038/s41590-018-0289-6

Zhang, L.J., Chen, S.X., Guerrero-Juarez, C.F., Li, F., Tong, Y., Liang, Y., Liggins, M., Chen, X., Chen, H., Li, M., Hata, T., Zheng, Y., Plikus, M.V., Gallo, R.L. Age-Related Loss of Innate Immune Antimicrobial Function of Dermal Fat Is Mediated by Transforming Growth Factor Beta. (2018) Immunity. DOI: 10.1016/j.immuni.2018.11.003

Klann, J.E., Kim, S.H., Remedios, K.A., He, Z., Metz, P.J., Lopez, J., Tysl, T., Olvera, J.G., Ablack, J.N., Cantor, J.M., Boland, B.S., Yeo, G., Zheng, Y., Lu, L.F., Bui, J.D., Ginsberg, M.H., Petrich, B.G., Chang, J.T. Integrin Activation Controls Regulatory T Cell-Mediated Peripheral Tolerance. (2018) Journal of Immunology. 200(12):4012-4023. DOI: 10.4049/jimmunol.1800112

Cao, Q., Zhao, X., Bai, J., Gery, S., Sun, H., Lin, D.C., Chen, Q., Chen, Z., Mack, L., Yang, H., Deng, R., Shi, X., Chong, L.W., Cho, H., Xie, J., Li, Q.Z., Müschen, M., Atkins, A.R., Liddle, C., Yu, R.T., Alkan, S., Said, J.W., Zheng, Y., Downes, M., Evans, R.M., Koeffler, H.P. Circadian clock cryptochrome proteins regulate autoimmunity. (2017) Proceedings of the National Academy of Sciences of the United States of America. 114(47):12548-12553. DOI: 10.1073/pnas.1619119114

He, N., Fan, W., Henriquez, B., Yu, R.T., Atkins, A.R., Liddle, C., Zheng, Y., Downes, M., Evans, R.M. Metabolic control of regulatory T cell (Treg) survival and function by Lkb1. (2017) Proc. Natl. Acad. Sci. U.S.A. 114(47):12542-12547. DOI: 10.1073/pnas.1715363114

Wang, J., He, N., Zhang, N., Quan, D., Zhang, S., Zhang, C., Yu, R.T., Atkins, A.R., Zhu, R., Yang, C., Cui, Y., Liddle, C., Downes, M., Xiao, H., Zheng, Y., Auwerx, J., Evans, R.M., Leng, Q. NCoR1 restrains thymic negative selection by repressing Bim expression to spare thymocytes undergoing positive selection. (2017) Nature Communications. 8(1):959. DOI: 10.1038/s41467-017-00931-8

Zheng, Y. A Rogue Foxp3 Mutant Undermines Treg Cell Function. (2017) Immunity. 47(2):211-214. DOI: 10.1016/j.immuni.2017.07.024

Klann, J.E., Remedios, K.A., Kim, S.H., Metz, P.J., Lopez, J., Mack, L.A., Zheng, Y., Ginsberg, M.H., Petrich, B.G., Chang, J.T. Talin Plays a Critical Role in the Maintenance of the Regulatory T Cell Pool. (2017) Journal of Immunology. 198(12):4639-4651. DOI: 10.4049/jimmunol.1601165

Chinen, T., Kannan, A.K., Levine, A.G., Fan, X., Klein, U., Zheng, Y., Gasteiger, G., Feng, Y., Fontenot, J.D., Rudensky, A.Y. An essential role for the IL-2 receptor in Treg cell function. (2016) Nature Immunology. 17(11):1322-1333. DOI: 10.1038/ni.3540

Liu, W.H., Kang, S.G., Huang, Z., Wu, C.J., Jin, H.Y., Maine, C.J., Liu, Y., Shepherd, J., Sabouri-Ghomi, M., Gonzalez-Martin, A., Xu, S., Hoffmann, A., Zheng, Y., Lu, L.F., Xiao, N., Fu, G., Xiao, C. A miR-155-Peli1-c-Rel pathway controls the generation and function of T follicular helper cells. (2016) Journal of Experimental Medicine. 213(9):1901-19. DOI: 10.1084/jem.20160204

Bapat, S.P., Myoung Suh, J., Fang, S., Liu, S., Zhang, Y., Cheng, A., Zhou, C., Liang, Y., LeBlanc, M., Liddle, C., Atkins, A.R., Yu, R.T., Downes, M., Evans, R.M., Zheng, Y. Depletion of fat-resident Treg cells prevents age-associated insulin resistance. (2015) Nature. 528(7580):137-41. DOI: 10.1038/nature16151

Hernandez, J.B., Chang, C., LeBlanc, M., Grimm, D., Le Lay, J., Kaestner, K.H., Zheng, Y., Montminy, M. The CREB/CRTC2 pathway modulates autoimmune disease by promoting Th17 differentiation. (2015) Nature Communications. 6:7216. DOI: 10.1038/ncomms8216

Li, X., Zheng, Y. Regulatory T cell identity: formation and maintenance. (2015) Trends in Immunology. 36(6):344-53. DOI: 10.1016/j.it.2015.04.006

Li, X., Liang, Y., LeBlanc, M., Benner, C., Zheng, Y. Function of a Foxp3 cis-element in protecting regulatory T cell identity. (2014) Cell. 158(4):734-48. DOI: 10.1016/j.cell.2014.07.030

Zheng, Y. ChIP-on-chip for FoxP3. (2011) Methods in Molecular Biology. 707:71-82. DOI: 10.1007/978-1-61737-979-6_6

Zheng, Y., Josefowicz, S., Chaudhry, A., Peng, X.P., Forbush, K., Rudensky, A.Y. Role of conserved non-coding DNA elements in the Foxp3 gene in regulatory T-cell fate. (2010) Nature. 463(7282):808-12. DOI: 10.1038/nature08750

Zheng, Y., Chaudhry, A., Kas, A., deRoos, P., Kim, J.M., Chu, T.T., Corcoran, L., Treuting, P., Klein, U., Rudensky, A.Y. Regulatory T-cell suppressor program co-opts transcription factor IRF4 to control T(H)2 responses. (2009) Nature. 458(7236):351-6. DOI: 10.1038/nature07674

Wang, J., Wang, X., Hussain, S., Zheng, Y., Sanjabi, S., Ouaaz, F., Beg, A.A. Distinct roles of different NF-kappa B subunits in regulating inflammatory and T cell stimulatory gene expression in dendritic cells. (2007) Journal of Immunology. 178(11):6777-88.

Zheng, Y., Rudensky, A.Y. Foxp3 in control of the regulatory T cell lineage. (2007) Nature Immunology. 8(5):457-62. DOI: 10.1038/ni1455

Zheng, Y., Josefowicz, S.Z., Kas, A., Chu, T.T., Gavin, M.A., Rudensky, A.Y. Genome-wide analysis of Foxp3 target genes in developing and mature regulatory T cells. (2007) Nature. 445(7130):936-40. DOI: 10.1038/nature05563

Hsieh, C.S., Zheng, Y., Liang, Y., Fontenot, J.D., Rudensky, A.Y. An intersection between the self-reactive regulatory and nonregulatory T cell receptor repertoires. (2006) Nature Immunology. 7(4):401-10. DOI: 10.1038/ni1318

Prendes, M., Zheng, Y., Beg, A.A. Regulation of developing B cell survival by RelA-containing NF-kappa B complexes. (2003) Journal of Immunology. 171(8):3963-9.

Qu, J., Li, X., Novitch, B.G., Zheng, Y., Kohn, M., Xie, J.M., Kozinn, S., Bronson, R., Beg, A.A., Minden, A. PAK4 kinase is essential for embryonic viability and for proper neuronal development. (2003) Molecular and Cellular Biology. 23(20):7122-33.

Tao, X., Xu, Y., Zheng, Y., Beg, A.A., Tong, L. An extensively associated dimer in the structure of the C713S mutant of the TIR domain of human TLR2. (2002) Biochemical and Biophysical Research Communications. 299(2):216-21. DOI: 10.1016/s0006-291x(02)02581-0

Ouaaz, F., Arron, J., Zheng, Y., Choi, Y., Beg, A.A. Dendritic cell development and survival require distinct NF-kappaB subunits. (2002) Immunity. 16(2):257-70.